|
| Status |
Public on Jun 01, 2019 |
| Title |
6869 D vs. 5428 D |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
6869
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
genotype: Rspo3 KO
cell type: colon cells
cell sorting: colon distal
|
| Treatment protocol |
Tamoxifen (Sigma) was injected intraperitoneally into mice either as single dose or on three consecutive days (4 mg/25 g bodyweight, diluted in 200 µl corn oil) at the indicated time points to deplete Rspo3 expression
|
| Growth protocol |
Animals were maintained in autoclaved microisolator cages and provided with sterile drinking water and chow ad libitum.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated by the Trizol (Invitrogen) method according the manufacturer´s protocol.
|
| Label |
Cy3
|
| Label protocol |
RNA labeling was performed with the Quick-Amp Labeling Kit (Agilent Technologies) according supplier's instructions.
|
| |
|
| Channel 2 |
| Source name |
5428
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
genotype: Rspo3++
cell type: colon
cell sorting: colon distal
|
| Treatment protocol |
Tamoxifen (Sigma) was injected intraperitoneally into mice either as single dose or on three consecutive days (4 mg/25 g bodyweight, diluted in 200 µl corn oil) at the indicated time points to deplete Rspo3 expression
|
| Growth protocol |
Animals were maintained in autoclaved microisolator cages and provided with sterile drinking water and chow ad libitum.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated by the Trizol (Invitrogen) method according the manufacturer´s protocol.
|
| Label |
Cy5
|
| Label protocol |
RNA labeling was performed with the Quick-Amp Labeling Kit (Agilent Technologies) according supplier's instructions.
|
| |
|
| |
| Hybridization protocol |
Whole mouse genome 4x44k microarrays were done according to the supplier’s protocol (Agilent Technologies).
|
| Scan protocol |
Scanning of microarrays was performed with 5 µm resolution and extended range (XDR) using a DNA microarray laser scanner (Agilent Technologies)
|
| Description |
polarity(-)
251486841825_1_2
|
| Data processing |
Raw microarray image data were analyzed with the Image Analysis / Feature Extraction software G2567AA (Version A.11.5.1.1, Agilent). The extracted MAGE-ML files were analyzed with the Rosetta Resolver Biosoftware (Rosetta Biosoftware). Intra-array data were normalized with the GE2_1105_Oct12 extraction protocol and interarray normalization was done by the mean of trimmed positive non-flagged/non-control reporters.
|
| |
|
| Submission date |
Jun 13, 2018 |
| Last update date |
Jun 01, 2019 |
| Contact name |
Hans-Joachim Mollenkopf |
| E-mail(s) |
[email protected]
|
| Phone |
+49 30 28460 482
|
| Organization name |
Max-Planck-Institute for Infection Biology
|
| Lab |
Microarray/Genomics Core Facility
|
| Street address |
Charitéplatz 1
|
| City |
Berlin |
| ZIP/Postal code |
10117 |
| Country |
Germany |
| |
|
| Platform ID |
GPL4134 |
| Series (1) |
| GSE115752 |
R-spondin 3 regulates stem cell plasticity and recovery of damaged colon epithelium |
|
